General information for g5974.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Immunoglobulin-binding protein 1.
Parent gene
- The parent gene g5974 is located on chr_2: 13119631..13120548 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_2 | g5974 | g5974.t4 | TTS | g5974.t4 | 13118287 | 13118287 |
| chr_2 | g5974 | g5974.t4 | isoform | g5974.t4 | 13118295 | 13119631 |
| chr_2 | g5974 | g5974.t4 | exon | g5974.t4.exon1 | 13118295 | 13118331 |
| chr_2 | g5974 | g5974.t4 | exon | g5974.t4.exon2 | 13118441 | 13119415 |
| chr_2 | g5974 | g5974.t4 | cds | g5974.t4.CDS1 | 13118471 | 13119415 |
| chr_2 | g5974 | g5974.t4 | exon | g5974.t4.exon3 | 13119533 | 13119631 |
| chr_2 | g5974 | g5974.t4 | cds | g5974.t4.CDS2 | 13119533 | 13119631 |
| chr_2 | g5974 | g5974.t4 | TSS | g5974.t4 | 13119601 | 13119601 |
Sequences
>g5974.t4 Gene=g5974 Length=1111
ATGGAAGAAATAAAGTTACAAGAATTATTTAGTGATGCATATAAATTATTTGAAACCTTT
GATACACGTGACGATCCCACCAATAGCCCAGAATTTCAAGATGATGTTAAAAAGTGTATT
CGAATGTTGGAAGACTCAACTCGTCTAGTGAATTTGAATGGAATGTTTAGCAAAAATGAA
TCGCATGAAGAGATAGCCACAAATAATCTCAAATATTTGCTGCTGCCTTTTCTACTCGCA
CAATCGACTTTGAAATTAACTAATGTACAGGATCGCAAAAATGTCGTGGATGTTGCAAAA
ATATATTTCGATGATTTTCTCAAACGTTGTGAGGAATATGGATTATGTGAGAGAAGCACG
ACTGCCGTTTCAAAAAATCAAGATATTATTTTACGCGATGAAATACAGAAATTAACTCAA
ATGGCTCAACAAAGAAACCAAAAACTACAGAAATATCAACAGAAAAAGGAACTGAAGGAT
CAAATTAAACAACTTAAAATTGCAATGGAAAGGGATGATTCTGACGAAGACACAAAAAGA
AATTTTTACTTGAAACTTATCAAATCATGCGTATGGGAGACACAAGATGAATTATCGACA
TTGGAACAAGAGTGTGAAATTCTCGAACATATCGCGAAATTAAAGGAACATGACTCAGAA
TTTAGACGAGAACATGAATCAACTTCTAAAAAGCCTCATCATTCACAAGTCGTTCCATTA
AAGCCAATTATTATTACAAAAGATCAATTGCAAAAAGCGGTTTACGGTGCTGGTTATCCA
TCTTTACCGACATATACTATTGAAGAATTTTATGATCAGCGTGTAGCAGCAGGCATTTTC
CCAAATGCTGAGCAAGTTGCTAAACAAAATTCATTACAAGGACGTTGCGATATTGATCAA
GAGGCGGAGCAAGCAAAAGAAGAAGAAGAAAAGGAACAAAAAATGGAGCAAGATGATCCC
GAATTATTACAACGTGCAAGAAATATGGATGAATATAAAGATGATCATCGTCGCGGTTAC
GGAAATCGCTATAATAGAAGTTAAGCATGCAACTTCTACTCCCATCTCTATTTAATTGGA
ACCAATAGGAGATGAAATAAAATTGTAAAAA
>g5974.t4 Gene=g5974 Length=347
MEEIKLQELFSDAYKLFETFDTRDDPTNSPEFQDDVKKCIRMLEDSTRLVNLNGMFSKNE
SHEEIATNNLKYLLLPFLLAQSTLKLTNVQDRKNVVDVAKIYFDDFLKRCEEYGLCERST
TAVSKNQDIILRDEIQKLTQMAQQRNQKLQKYQQKKELKDQIKQLKIAMERDDSDEDTKR
NFYLKLIKSCVWETQDELSTLEQECEILEHIAKLKEHDSEFRREHESTSKKPHHSQVVPL
KPIIITKDQLQKAVYGAGYPSLPTYTIEEFYDQRVAAGIFPNAEQVAKQNSLQGRCDIDQ
EAEQAKEEEEKEQKMEQDDPELLQRARNMDEYKDDHRRGYGNRYNRS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g5974.t4 | Coils | Coil | Coil | 135 | 175 | - |
| 6 | g5974.t4 | Coils | Coil | Coil | 298 | 319 | - |
| 4 | g5974.t4 | Gene3D | G3DSA:1.25.40.540 | - | 4 | 223 | 1.3E-61 |
| 3 | g5974.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 302 | 347 | - |
| 2 | g5974.t4 | PANTHER | PTHR10933 | IMMUNOGLOBULIN-BINDING PROTEIN 1 | 2 | 346 | 5.7E-82 |
| 1 | g5974.t4 | Pfam | PF04177 | TAP42-like family | 6 | 337 | 6.3E-81 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5974/g5974.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5974.t4.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0009966 | regulation of signal transduction | BP |
KEGG
Orthology
- This transcript has been annotated with K17606 (immunoglobulin-binding protein 1)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
